Wubing Zhang
| Snapshot Date: 2022-07-06 14:00:06 -0400 (Wed, 06 Jul 2022) |
| git_url: https://git.bioconductor.org/packages/MAGeCKFlute |
| git_branch: master |
| git_last_commit: 23b746d |
| git_last_commit_date: 2022-04-26 11:45:54 -0400 (Tue, 26 Apr 2022) |
| Back to Multiple platform build/check report for BioC 3.16 |
|
This page was generated on 2022-07-07 11:11:25 -0400 (Thu, 07 Jul 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | 4.2.0 Patched (2022-06-02 r82447) -- "Vigorous Calisthenics" | 4343 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.2.0 Patched (2022-06-02 r82447 ucrt) -- "Vigorous Calisthenics" | 4148 |
| lconway | macOS 12.2.1 Monterey | x86_64 | 4.2.0 Patched (2022-05-29 r82424) -- "Vigorous Calisthenics" | 4160 |
| kjohnson | macOS 12.4 Monterey | arm64 | 4.2.0 Patched (2022-06-09 r82473) -- "Vigorous Calisthenics" | 3115 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
|
To the developers/maintainers of the MAGeCKFlute package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/MAGeCKFlute.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1055/2124 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| MAGeCKFlute 2.1.0 (landing page) Wubing Zhang
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.2.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson | macOS 12.4 Monterey / arm64 | OK | ERROR | skipped | skipped | |||||||||
| Package: MAGeCKFlute |
| Version: 2.1.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data MAGeCKFlute |
| StartedAt: 2022-07-06 23:37:19 -0400 (Wed, 06 Jul 2022) |
| EndedAt: 2022-07-06 23:40:34 -0400 (Wed, 06 Jul 2022) |
| EllapsedTime: 194.4 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data MAGeCKFlute
###
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* checking for file ‘MAGeCKFlute/DESCRIPTION’ ... OK
* preparing ‘MAGeCKFlute’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘MAGeCKFlute.Rmd’ using rmarkdown
snapshotDate(): 2022-06-29
##############################################################################
Pathview is an open source software package distributed under GNU General
Public License version 3 (GPLv3). Details of GPLv3 is available at
http://www.gnu.org/licenses/gpl-3.0.html. Particullary, users are required to
formally cite the original Pathview paper (not just mention it) in publications
or products. For details, do citation("pathview") within R.
The pathview downloads and uses KEGG data. Non-academic uses may require a KEGG
license agreement (details at http://www.kegg.jp/kegg/legal.html).
##############################################################################
clusterProfiler v4.5.1 For help: https://yulab-smu.top/biomedical-knowledge-mining-book/
If you use clusterProfiler in published research, please cite:
T Wu, E Hu, S Xu, M Chen, P Guo, Z Dai, T Feng, L Zhou, W Tang, L Zhan, X Fu, S Liu, X Bo, and G Yu. clusterProfiler 4.0: A universal enrichment tool for interpreting omics data. The Innovation. 2021, 2(3):100141
Attaching package: 'clusterProfiler'
The following object is masked from 'package:stats':
filter
Warning: ggrepel: 5 unlabeled data points (too many overlaps). Consider increasing max.overlaps
Warning: ggrepel: 8 unlabeled data points (too many overlaps). Consider increasing max.overlaps
2022-07-06 23:38:44 # Running KEGG enrichment analysis
5 genes are mapped ...
2022-07-06 23:38:46 # Running KEGG enrichment analysis
10 genes are mapped ...
Quitting from lines 278-288 (MAGeCKFlute.Rmd)
Error: processing vignette 'MAGeCKFlute.Rmd' failed with diagnostics:
Package "sva" is required. Please install it.
--- failed re-building ‘MAGeCKFlute.Rmd’
--- re-building ‘MAGeCKFlute_enrichment.Rmd’ using rmarkdown
2022-07-06 23:38:52 # Running Pathway enrichment analysis
107 genes are mapped ...
2022-07-06 23:39:06 # Running KEGG enrichment analysis
54 genes are mapped ...
2022-07-06 23:39:09 # Running Pathway enrichment analysis
8561 genes are mapped ...
preparing geneSet collections...
GSEA analysis...
leading edge analysis...
done...
2022-07-06 23:39:54 # Running Complex enrichment analysis
9 genes are mapped ...
2022-07-06 23:39:56 # Running GOBP enrichment analysis
155 genes are mapped ...
2022-07-06 23:40:23 # Running Pathway enrichment analysis
107 genes are mapped ...
--- finished re-building ‘MAGeCKFlute_enrichment.Rmd’
SUMMARY: processing the following file failed:
‘MAGeCKFlute.Rmd’
Error: Vignette re-building failed.
Execution halted